Pseudogenes are genes with an interrupted open reading frame (ORF), and mostly do not encode active proteins.
A comparison between genome sequences from C. trachomatis serovars A and D identified only 18 significant deletions in either strain, producing eight pseudogenes (interrupted open reading frames) in serovar A [ 9].
To determine whether mobile genetic elements interrupted open reading frames, the nucleotide regions before and after each element were concatenated and aligned to the NCBI-nr sequences using BLASTN.
The intron retained is the first one after the initial exon and interrupts the open reading frame (ORF) just after the signal peptide introducing a premature stop codon (PSC).
Pseudogenes are often detected during manual curation of these gene predictions, because the gene model cannot be modeled consistently with homologous protein alignments due to sequence degeneracy that results in stop codons that interrupt the open reading frame.
These novel RNA isoforms contained exons with premature stop codons that, when included, interrupted their open reading frames, resulting in decreased levels of these factors and facilitating their elimination by nonsense-mediated mRNA decay.
However, the deletion of exon 13 does not interrupt the open reading frame and there are no indels or point mutations present elsewhere in the coding region, that would lead to frameshifts or premature stop codons.
Using Geneious, contigs were annotated and sequences in which stop-codons interrupted the open reading frames (potentially representing sequencing artifacts or pseudogenes), or sequence fractions with stop codons located external to the venom domain of interest were removed from downstream alignments.
The rational of using silicone oil as intraocular tamponade is to interrupt the open communication between the subretinal space/retinal pigment epithelial cells and the preretinal space with the aim of securing, in the first few days after surgery, chorioretinal adhesion induced by cryo- or laser treatment.
Would any of these Spanish players be so happy about interrupting their French Open training to run off to Australia to play on grass?
